Nucleic Acids Research, 2003, Vol. 31, No. 13 3406-3415
© 2003 Oxford University Press
Mfold web server for nucleic acid folding and hybridization prediction
Department of Mathematical Sciences, Rensselaer Polytechnic Institute, Troy, NY 12180, USA
*Tel: +1 5182766902; Fax: +1 5182764824; Email: zukerm{at}rpi.edu
The abbreviated name, ‘mfold web server’, describes a number of closely related software applications available on the World Wide Web (WWW) for the prediction of the secondary structure of single stranded nucleic acids. The objective of this web server is to provide easy access to RNA and DNA folding and hybridization software to the scientific community at large. By making use of universally available web GUIs (Graphical User Interfaces), the server circumvents the problem of portability of this software. Detailed output, in the form of structure plots with or without reliability information, single strand frequency plots and ‘energy dot plots’, are available for the folding of single sequences. A variety of ‘bulk’ servers give less information, but in a shorter time and for up to hundreds of sequences at once. The portal for the mfold web server is http://www.bioinfo.rpi.edu/applications/mfold. This URL will be referred to as ‘MFOLDROOT’.
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G. Deikus and D. H. Bechhofer Bacillus subtilis trp Leader RNA: RNase J1 ENDONUCLEASE CLEAVAGE SPECIFICITY AND PNPase PROCESSING J. Biol. Chem., September 25, 2009; 284(39): 26394 - 26401. [Abstract] [Full Text] [PDF]
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J. A. Mertz, A. B. Chadee, H. Byun, R. Russell, and J. P. Dudley Mapping of the Functional Boundaries and Secondary Structure of the Mouse Mammary Tumor Virus Rem-responsive Element J. Biol. Chem., September 18, 2009; 284(38): 25642 - 25652. [Abstract] [Full Text] [PDF]
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J. M. Peters, R. A. Mooney, P. F. Kuan, J. L. Rowland, S. Keles, and R. Landick Rho directs widespread termination of intragenic and stable RNA transcription PNAS, September 8, 2009; 106(36): 15406 - 15411. [Abstract] [Full Text] [PDF]
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 Y. Zhang and G. Hong Post-transcriptional regulation of NifA expression by Hfq and RNase E complex in Rhizobium leguminosarum bv. viciae Acta Biochim Biophys Sin, September 1, 2009; 41(9): 719 - 730. [Abstract] [Full Text] [PDF]
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R. S. P. Horler and C. K. Vanderpool Homologs of the small RNA SgrS are broadly distributed in enteric bacteria but have diverged in size and sequence Nucleic Acids Res., September 1, 2009; 37(16): 5465 - 5476. [Abstract] [Full Text] [PDF]
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Y. Terui, K. Higashi, Y. Tabei, H. Tomitori, K. Yamamoto, A. Ishihama, K. Igarashi, and K. Kashiwagi Enhancement of the Synthesis of RpoE and StpA by Polyamines at the Level of Translation in Escherichia coli under Heat Shock Conditions J. Bacteriol., September 1, 2009; 191(17): 5348 - 5357. [Abstract] [Full Text] [PDF]
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S. Chirayil, R. Chirayil, and K. J. Luebke Discovering ligands for a microRNA precursor with peptoid microarrays Nucleic Acids Res., September 1, 2009; 37(16): 5486 - 5497. [Abstract] [Full Text] [PDF]
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